Strain identifier
BacDive ID: 11294
Type strain: 
Species: Thalassolituus oleivorans
Strain Designation: Mil-1
Strain history: <- P. N. Golyshin, GBF; Mil1 <- M. M. Yakimov and R. Denaro
NCBI tax ID(s): 187493 (species)
version 8.1 (current version)
General
@ref: 5457
BacDive-ID: 11294
DSM-Number: 14913
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, coccus-shaped
description: Thalassolituus oleivorans Mil-1 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from seawater, sediment interface.
NCBI tax id
- NCBI tax id: 187493
- Matching level: species
strain history
- @ref: 5457
- history: <- P. N. Golyshin, GBF; Mil1 <- M. M. Yakimov and R. Denaro
doi: 10.13145/bacdive11294.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Oceanospirillales
- family: Oceanospirillaceae
- genus: Thalassolituus
- species: Thalassolituus oleivorans
- full scientific name: Thalassolituus oleivorans Yakimov et al. 2004
@ref: 5457
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Oceanospirillales
family: Oceanospirillaceae
genus: Thalassolituus
species: Thalassolituus oleivorans
full scientific name: Thalassolituus oleivorans Yakimov et al. 2004
strain designation: Mil-1
type strain: yes
Morphology
cell morphology
- @ref: 29887
- gram stain: negative
- cell shape: coccus-shaped
- motility: yes
colony morphology
- @ref: 5457
- incubation period: 1-2 days
pigmentation
- @ref: 29887
- production: yes
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 5457 | BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) | yes | https://mediadive.dsmz.de/medium/514 | Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514; with strain-specific modifications) Composition: NaCl 19.45 g/l Tween 80 10.0 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water |
| 5457 | ONR7a MEDIUM (DSMZ Medium 950) | yes | https://mediadive.dsmz.de/medium/950 | Name: ONR7a MEDIUM (DSMZ Medium 950) Composition: NaCl 22.79 g/l Agar 15.0 g/l Agarose 12.0 g/l MgCl2 x 6 H2O 11.18 g/l Na2SO4 3.98 g/l CaCl2 x 2 H2O 1.46 g/l TAPSO 1.3 g/l KCl 0.72 g/l NH4Cl 0.27 g/l Na2HPO4 x 7 H2O 0.089 g/l NaBr 0.083 g/l NaHCO3 0.031 g/l H3BO3 0.027 g/l SrCl2 x 6 H2O 0.024 g/l NaF 0.0026 g/l FeCl2 x 4 H2O 0.002 g/l Distilled water |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 5457 | positive | growth | 25 | mesophilic |
| 29887 | positive | growth | 04-30 | |
| 29887 | positive | optimum | 20-25 |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 29887 | positive | growth | 7.5-9 | alkaliphile |
| 29887 | positive | optimum | 8 |
Physiology and metabolism
oxygen tolerance
- @ref: 29887
- oxygen tolerance: aerobe
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 29887 | NaCl | positive | growth | 0.5-5.7 % |
| 29887 | NaCl | positive | optimum | 02-03 % |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 29887 | 30089 | acetate | + | carbon source |
| 29887 | 53424 | tween 20 | + | carbon source |
| 29887 | 53423 | tween 40 | + | carbon source |
| 29887 | 53426 | tween 80 | + | carbon source |
Isolation, sampling and environmental information
isolation
- @ref: 5457
- sample type: seawater, sediment interface
- geographic location: Sicily, Milazzo harbor
- country: Italy
- origin.country: ITA
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Marine |
| #Environmental | #Aquatic | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_3107.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_306;96_1621;97_1939;98_2385;99_3107&stattab=map
- Last taxonomy: Thalassolituus oleivorans subclade
- 16S sequence: AJ431699
- Sequence Identity:
- Total samples: 9863
- soil counts: 354
- aquatic counts: 8475
- animal counts: 968
- plant counts: 66
Safety information
risk assessment
- @ref: 5457
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 5457
- description: Thalassolituus oleivorans partial 16S rRNA gene, strain MIL-1
- accession: AJ431699
- length: 1366
- database: ena
- NCBI tax ID: 1298593
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Thalassolituus oleivorans MIL-1 | GCA_000355675 | complete | ncbi | 1298593 |
| 66792 | Thalassolituus oleivorans MIL-1 | 1298593.3 | complete | patric | 1298593 |
| 66792 | Thalassolituus oleivorans MIL-1 | 2597489935 | complete | img | 1298593 |
GC content
- @ref: 29887
- GC-content: 53.2
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | yes | 90.998 | yes |
| flagellated | yes | 90.182 | no |
| gram-positive | no | 98.898 | yes |
| anaerobic | no | 98.354 | yes |
| aerobic | yes | 85.974 | yes |
| halophile | yes | 71.796 | no |
| spore-forming | no | 96.561 | no |
| glucose-util | no | 51.996 | no |
| thermophile | no | 98.973 | yes |
| glucose-ferment | no | 90.442 | no |
External links
@ref: 5457
culture collection no.: DSM 14913, LMG 21420
straininfo link
- @ref: 80527
- straininfo: 86370
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 14742471 | Thalassolituus oleivorans gen. nov., sp. nov., a novel marine bacterium that obligately utilizes hydrocarbons. | Yakimov MM, Giuliano L, Denaro R, Crisafi E, Chernikova TN, Abraham WR, Luensdorf H, Timmis KN, Golyshin PN | Int J Syst Evol Microbiol | 10.1099/ijs.0.02424-0 | 2004 | Alkanes/pharmacokinetics, Base Composition, Biodegradation, Environmental, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Gammaproteobacteria/*classification/isolation & purification/metabolism/ultrastructure, Hydrocarbons/*pharmacokinetics, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology | Enzymology |
| Phylogeny | 23148102 | Thalassolituus marinus sp. nov., a hydrocarbon-utilizing marine bacterium. | Choi A, Cho JC | Int J Syst Evol Microbiol | 10.1099/ijs.0.046383-0 | 2012 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Hydrocarbons/*metabolism, Molecular Sequence Data, Oceanospirillaceae/*classification/genetics/isolation & purification/metabolism, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis, Water Microbiology | Metabolism |
| Genetics | 23599290 | Genome Sequence of Thalassolituus oleivorans MIL-1 (DSM 14913T). | Golyshin PN, Werner J, Chernikova TN, Tran H, Ferrer M, Yakimov MM, Teeling H, Golyshina OV | Genome Announc | 10.1128/genomeA.00141-13 | 2013 |
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 5457 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14913) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-14913 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 29887 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26260 | 28776041 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 80527 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID86370.1 | StrainInfo: A central database for resolving microbial strain identifiers |